Literature DB >> 28138070

Crystal structure of eukaryotic ribosome and its complexes with inhibitors.

Gulnara Yusupova1, Marat Yusupov2.   

Abstract

A high-resolution structure of the eukaryotic ribosome has been determined and has led to increased interest in studying protein biosynthesis and regulation of biosynthesis in cells. The functional complexes of the ribosome crystals obtained from bacteria and yeast have permitted researchers to identify the precise residue positions in different states of ribosome function. This knowledge, together with electron microscopy studies, enhances our understanding of how basic ribosome processes, including mRNA decoding, peptide bond formation, mRNA, and tRNA translocation and cotranslational transport of the nascent peptide, are regulated. In this review, we discuss the crystal structure of the entire 80S ribosome from yeast, which reveals its eukaryotic-specific features, and application of X-ray crystallography of the 80S ribosome for investigation of the binding mode for distinct compounds known to inhibit or modulate the protein-translation function of the ribosome. We also refer to a challenging aspect of the structural study of ribosomes, from higher eukaryotes, where the structures of major distinctive features of higher eukaryote ribosome-the high-eukaryote-specific long ribosomal RNA segments (about 1MDa)-remain unresolved. Presently, the structures of the major part of these high-eukaryotic expansion ribosomal RNA segments still remain unresolved.This article is part of the themed issue 'Perspectives on the ribosome'.
© 2017 The Author(s).

Entities:  

Keywords:  crystal structure; inhibitors; yeast ribosome

Mesh:

Substances:

Year:  2017        PMID: 28138070      PMCID: PMC5311928          DOI: 10.1098/rstb.2016.0184

Source DB:  PubMed          Journal:  Philos Trans R Soc Lond B Biol Sci        ISSN: 0962-8436            Impact factor:   6.237


  83 in total

1.  Cryoelectron microscopy structures of the ribosome complex in intermediate states during tRNA translocation.

Authors:  Jie Fu; James B Munro; Scott C Blanchard; Joachim Frank
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2.  Crystallization of halophilic malate dehydrogenase from Halobacterium marismortui.

Authors:  M Harel; M Shoham; F Frolow; H Eisenberg; M Mevarech; A Yonath; J L Sussman
Journal:  J Mol Biol       Date:  1988-04-05       Impact factor: 5.469

3.  Parameters for crystal growth of ribosomal subunits.

Authors:  A Yonath; J Müssig; H G Wittmann
Journal:  J Cell Biochem       Date:  1982       Impact factor: 4.429

4.  Eukaryotic ribosomal RNA determinants of aminoglycoside resistance and their role in translational fidelity.

Authors:  Hua Fan-Minogue; David M Bedwell
Journal:  RNA       Date:  2007-11-14       Impact factor: 4.942

5.  U2504 determines the species specificity of the A-site cleft antibiotics: the structures of tiamulin, homoharringtonine, and bruceantin bound to the ribosome.

Authors:  Güliz Gürel; Gregor Blaha; Peter B Moore; Thomas A Steitz
Journal:  J Mol Biol       Date:  2009-04-09       Impact factor: 5.469

6.  The mechanism for activation of GTP hydrolysis on the ribosome.

Authors:  Rebecca M Voorhees; T Martin Schmeing; Ann C Kelley; V Ramakrishnan
Journal:  Science       Date:  2010-11-05       Impact factor: 47.728

7.  Crystal structures of the ribosome in complex with release factors RF1 and RF2 bound to a cognate stop codon.

Authors:  Sabine Petry; Ditlev E Brodersen; Frank V Murphy; Christine M Dunham; Maria Selmer; Michael J Tarry; Ann C Kelley; V Ramakrishnan
Journal:  Cell       Date:  2005-12-29       Impact factor: 41.582

8.  Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling.

Authors:  Nicholas T Ingolia; Sina Ghaemmaghami; John R S Newman; Jonathan S Weissman
Journal:  Science       Date:  2009-02-12       Impact factor: 47.728

9.  Formation of the first peptide bond: the structure of EF-P bound to the 70S ribosome.

Authors:  Gregor Blaha; Robin E Stanley; Thomas A Steitz
Journal:  Science       Date:  2009-08-21       Impact factor: 47.728

10.  Novel base-pairing interactions at the tRNA wobble position crucial for accurate reading of the genetic code.

Authors:  Alexey Rozov; Natalia Demeshkina; Iskander Khusainov; Eric Westhof; Marat Yusupov; Gulnara Yusupova
Journal:  Nat Commun       Date:  2016-01-21       Impact factor: 14.919

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  13 in total

Review 1.  Relating Structure and Dynamics in RNA Biology.

Authors:  Kevin P Larsen; Junhong Choi; Arjun Prabhakar; Elisabetta Viani Puglisi; Joseph D Puglisi
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-07-01       Impact factor: 10.005

2.  Perspectives on the ribosome.

Authors:  Thomas A Steitz; Peter B Moore
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2017-03-19       Impact factor: 6.237

Review 3.  New Insights into Ribosome Structure and Function.

Authors:  Amy Jobe; Zheng Liu; Cristina Gutierrez-Vargas; Joachim Frank
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-01-02       Impact factor: 10.005

Review 4.  Life under the Microscope: Single-Molecule Fluorescence Highlights the RNA World.

Authors:  Sujay Ray; Julia R Widom; Nils G Walter
Journal:  Chem Rev       Date:  2018-01-24       Impact factor: 60.622

5.  Cryo-EM structure of Mycobacterium smegmatis ribosome reveals two unidentified ribosomal proteins close to the functional centers.

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Journal:  Protein Cell       Date:  2018-04       Impact factor: 14.870

6.  CTELS: A Cell-Free System for the Analysis of Translation Termination Rate.

Authors:  Kseniya A Lashkevich; Valeriya I Shlyk; Artem S Kushchenko; Vadim N Gladyshev; Elena Z Alkalaeva; Sergey E Dmitriev
Journal:  Biomolecules       Date:  2020-06-16

Review 7.  Translating the Game: Ribosomes as Active Players.

Authors:  Piera Calamita; Guido Gatti; Annarita Miluzio; Alessandra Scagliola; Stefano Biffo
Journal:  Front Genet       Date:  2018-11-15       Impact factor: 4.599

8.  Chimeric Translation for Mitochondrial Peptides: Regular and Expanded Codons.

Authors:  Hervé Seligmann; Ganesh Warthi
Journal:  Comput Struct Biotechnol J       Date:  2019-08-23       Impact factor: 7.271

Review 9.  An Update on Mitochondrial Ribosome Biology: The Plant Mitoribosome in the Spotlight.

Authors:  Artur Tomal; Malgorzata Kwasniak-Owczarek; Hanna Janska
Journal:  Cells       Date:  2019-12-03       Impact factor: 6.600

10.  Stringent Nucleotide Recognition by the Ribosome at the Middle Codon Position.

Authors:  Wei Liu; Dongwon Shin; Martin Ng; Karissa Y Sanbonmatsu; Yitzhak Tor; Barry S Cooperman
Journal:  Molecules       Date:  2017-08-29       Impact factor: 4.411

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